dan_1441

intron [Dana\GF18978-in]; CDS [Dana\GF18978-cds]; exon [dana_GLEANR_20368:2]; CDS [Dana\GF18978-cds]; exon [dana_GLEANR_20368:1]; intron [Dana\GF18978-in]

Repeatable elements

Name	Class	Family	Strand
Hoana2	DNA	hAT-Ac	-

Name

Class

Family

Strand

Hoana2

DNA

hAT-Ac

Sense Strand Reads

##################################################-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------########################################---------- GGGACAGCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGGGCCATCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGGTAGGGGGGGTGAATTTCCGCCCTATATAGGTTTAGCCAGTACTAGAGGTGGGGAACTTCGTAGTTTGAGAAAAACTATCGCTCGCTACAGATGGTGCCGATATCGATAGTTCCCCACCTCTAGTCAGAACAGGTGGCGAATAATTGACCGATCTGAAATAAAAACAAACAATTAAATACAATAAATTTAACCGCTTTACCTCCTGCAGGGACAGGGCAAGTTGGGTGCGGCCATATCGCCTCCTCCAGGTCAGTGGCA ****************************************************************************************...((....((((((..((...((((((.((........)).))))))...))..............))))))))************************************************************************************************************************************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V106 head	V039 embryo	V055 head	V105 male body
..........................................................................................CAGCCAGGTCGCCTCCTCC......................................................................................................................................................................................................................................................................	19	0	20	0.30	6	6	0	0	0	0
............................................................................................................................................................AGAGATGGGGAACTCCGT.....................................................................................................................................................................................................	18	2	5	0.20	1	0	1	0	0	0
...........................................................................................................................................................AAGAGATGGGGAACTCCGT.....................................................................................................................................................................................................	19	3	20	0.15	3	0	0	0	0	3
................................................................................................................................................TTAGCCAGTACTAGAGGTGGG..............................................................................................................................................................................................................	21	0	20	0.15	3	0	0	3	0	0
.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGT............................................................................................................................................................................................................	22	1	20	0.10	2	2	0	0	0	0
................................................................................CTCCAGCAGCCAGCCAGGTCGCC............................................................................................................................................................................................................................................................................	23	0	20	0.10	2	0	2	0	0	0
..............................................................................................................................................................................................................................................................................................................................CATGGACAGGGCAAGTAG...................................	18	2	13	0.08	1	0	0	0	1	0
..................................................................................................................................................................................................................................................CAGGTGGCGAATAATTGACCGA...........................................................................................................	22	0	18	0.06	1	1	0	0	0	0
.....................................................................................GCAGCCAGCCAGGTCGCCTCCTCCA.....................................................................................................................................................................................................................................................................	25	0	20	0.05	1	0	1	0	0	0
............................................................................CCTCCTCCAGCAGCCAGCC....................................................................................................................................................................................................................................................................................	19	0	20	0.05	1	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................................................................................ATCGCCTCCCCCGGGTGAGTG...	21	3	20	0.05	1	0	0	1	0	0
..................................................................................................................AGGGTGGGTGGTTTTCCGCC.............................................................................................................................................................................................................................................	20	3	20	0.05	1	0	0	0	1	0
.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGA............................................................................................................................................................................................................	22	0	20	0.05	1	1	0	0	0	0
....................................................................................................................................................................................................................................................................................................AATAAATTTAACCACCCTAC...........................................................	20	3	20	0.05	1	1	0	0	0	0
...........................................................................................................................................................TAGACGTCGGAAACTTCGT.....................................................................................................................................................................................................	19	3	20	0.05	1	0	0	0	1	0
...................................................................................................................................................................................................................................................AGGTGGCGAATAATTGCGA.............................................................................................................	19	3	20	0.05	1	0	0	1	0	0

##################################################-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------########################################----------
GGGACAGCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGGGCCATCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGGTAGGGGGGGTGAATTTCCGCCCTATATAGGTTTAGCCAGTACTAGAGGTGGGGAACTTCGTAGTTTGAGAAAAACTATCGCTCGCTACAGATGGTGCCGATATCGATAGTTCCCCACCTCTAGTCAGAACAGGTGGCGAATAATTGACCGATCTGAAATAAAAACAAACAATTAAATACAATAAATTTAACCGCTTTACCTCCTGCAGGGACAGGGCAAGTTGGGTGCGGCCATATCGCCTCCTCCAGGTCAGTGGCA
******************************************************************************************...((....((((((..((...((((((.((........)).))))))...))..............))))))))**************************************************************************************************************************************************************************************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

M058
embryo

V106
head

V039
embryo

V055
head

V105
male body

..........................................................................................CAGCCAGGTCGCCTCCTCC......................................................................................................................................................................................................................................................................

0.30

............................................................................................................................................................AGAGATGGGGAACTCCGT.....................................................................................................................................................................................................

0.20

...........................................................................................................................................................AAGAGATGGGGAACTCCGT.....................................................................................................................................................................................................

0.15

................................................................................................................................................TTAGCCAGTACTAGAGGTGGG..............................................................................................................................................................................................................

0.15

.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGT............................................................................................................................................................................................................

0.10

................................................................................CTCCAGCAGCCAGCCAGGTCGCC............................................................................................................................................................................................................................................................................

0.10

..............................................................................................................................................................................................................................................................................................................................CATGGACAGGGCAAGTAG...................................

0.08

..................................................................................................................................................................................................................................................CAGGTGGCGAATAATTGACCGA...........................................................................................................

0.06

.....................................................................................GCAGCCAGCCAGGTCGCCTCCTCCA.....................................................................................................................................................................................................................................................................

0.05

............................................................................CCTCCTCCAGCAGCCAGCC....................................................................................................................................................................................................................................................................................

0.05

...........................................................................................................................................................................................................................................................................................................................................................ATCGCCTCCCCCGGGTGAGTG...

0.05

..................................................................................................................AGGGTGGGTGGTTTTCCGCC.............................................................................................................................................................................................................................................

0.05

.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGA............................................................................................................................................................................................................

0.05

....................................................................................................................................................................................................................................................................................................AATAAATTTAACCACCCTAC...........................................................

0.05

...........................................................................................................................................................TAGACGTCGGAAACTTCGT.....................................................................................................................................................................................................

0.05

...................................................................................................................................................................................................................................................AGGTGGCGAATAATTGCGA.............................................................................................................

0.05

Anti-sense strand reads

CCCTGTCGGTCCAGCGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCAATCCCCGTCCCCGGTAGGTCCAGTGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCCATCCCCCCCACTTAAAGGCGGGATATATCCAAATCGGTCATGATCTCCACCCCTTGAAGCATCAAACTCTTTTTGATAGCGAGCGATGTCTACCACGGCTATAGCTATCAAGGGGTGGAGATCAGTCTTGTCCACCGCTTATTAACTGGCTAGACTTTATTTTTGTTTGTTAATTTATGTTATTTAAATTGGCGAAATGGAGGACGTCCCTGTCCCGTTCAACCCACGCCGGTATAGCGGAGGAGGTCCAGTCACCGT ************************************************************************************************************************************************************************************************************...((....((((((..((...((((((.((........)).))))))...))..............))))))))****************************************************************************************	Read size	# Mismatch	Hit Count	Total Norm	Total	M058 embryo	V039 embryo	M044 female body	V055 head	V106 head
..............................................................................................................CTCATCCCCCCCACTTAAAAG................................................................................................................................................................................................................................................	21	2	2	0.50	1	0	1	0	0	0
..................................................................................................................................................................................................................................GGTGGAGATCAGTCTTGTCCA............................................................................................................................	21	0	20	0.35	7	0	0	7	0	0
...TGTCGGTCCAGCGGAGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................	22	0	20	0.20	4	2	2	0	0	0
.......................................................CCCGTCCCCGGTAGGTCCAGT.......................................................................................................................................................................................................................................................................................................	21	0	20	0.15	3	3	0	0	0	0
...............................................................................................................................................................................................................................AGGGGTGGAGATCAGTCTTGT...............................................................................................................................	21	0	20	0.15	3	3	0	0	0	0
....GTCGGTCCAGCGGAGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................	21	0	20	0.15	3	0	3	0	0	0
...........................................................................................................................................................................................................................ATCAAGGGGTGGAGATCAGTC...................................................................................................................................	21	0	20	0.15	3	3	0	0	0	0
..................GGAGGTCGTCGGTCGGTC...............................................................................................................................................................................................................................................................................................................................................	18	0	20	0.15	3	0	3	0	0	0
...............................................................................................................................................................................................................................................................................................................................CCCCTGTCCCGCTCGACCCACG..............................	22	3	7	0.14	1	0	0	0	1	0
..............................................................................AGGAGGTCGTCGGTCGGTCC.................................................................................................................................................................................................................................................................................	20	0	20	0.10	2	0	0	0	0	2
..........................................................................................................................................................................................................................................................................................................................TTACGTCCCTGTCCCGTTCTA....................................	21	3	10	0.10	1	0	0	0	1	0
............AGCGGAGGAGGTCGTCGCTC...................................................................................................................................................................................................................................................................................................................................................	20	1	20	0.10	2	2	0	0	0	0
...TGTCGGTCCAGCGGAGGA..............................................................................................................................................................................................................................................................................................................................................................	18	0	20	0.10	2	1	1	0	0	0
....................................................................................................................................................................................................................................TGGAGATCAGTCTTGTCCACC..........................................................................................................................	21	0	20	0.10	2	2	0	0	0	0
............................................................................................................................................................................................................................................................................TTTATTTTTGTTTGTTAATTT..................................................................................	21	0	20	0.10	2	2	0	0	0	0
..............................................................................................................................................................................................................................AAGGGGTGGAGATCAGTCTTG................................................................................................................................	21	0	20	0.10	2	2	0	0	0	0
..........................................................................................................................................................................................................................................................................................................................TGACGACCCTGTCCCGTTCTA....................................	21	3	10	0.10	1	0	0	0	1	0
...........................................................................................................................................................................................................................................................................................CAATTTATGTGATTTATATTGG..................................................................	22	3	11	0.09	1	0	1	0	0	0
CCCTGTCGGTCCCGCGGAGG...............................................................................................................................................................................................................................................................................................................................................................	20	1	12	0.08	1	1	0	0	0	0
...........................................................................................................................................................................................................................................................................................................AATTGGCGAGACGGAGGA......................................................	18	2	16	0.06	1	0	0	0	1	0
...............................................................................................................................................................................................GCGAGCGATGTCTACCACGGC...............................................................................................................................................................	21	0	17	0.06	1	0	0	1	0	0
....................................................................................................................................................................................TCTTTTTGATAGCGAGCGAGG..........................................................................................................................................................................	21	1	20	0.05	1	1	0	0	0	0
.................................................................................................................................................................................................................................GGGTGGAGATCAGTCTTGTCC.............................................................................................................................	21	0	20	0.05	1	0	0	1	0	0
............................................................CCCCGGTAGGTCCAGTGGAGG..................................................................................................................................................................................................................................................................................................	21	0	20	0.05	1	0	0	1	0	0
.............................................................................................GGTCCAGCGGAGGAGGTCCCA.................................................................................................................................................................................................................................................................	21	0	20	0.05	1	0	0	1	0	0
........................................................................................................................................................................................................................................................CGATCATTAACTGGCTAGA........................................................................................................	19	2	20	0.05	1	0	0	0	1	0
.................................................................................................CAGCGGAGGAGGTCCCATCC..............................................................................................................................................................................................................................................................	20	0	20	0.05	1	0	0	1	0	0
...........................................................................................................................................................................................................................................................................................................................................................TTGCGGAGGAGGTCCAGTC.....	19	1	20	0.05	1	0	0	1	0	0
.....................................................................................................................CCCCCACTTGAATGCCGGA...........................................................................................................................................................................................................................................	19	3	20	0.05	1	1	0	0	0	0
.........................................................CATCCCCGGTAGGTCCAGTG......................................................................................................................................................................................................................................................................................................	20	1	20	0.05	1	1	0	0	0	0
..............................TCGGTCCAGCGGAGGAGGTCCAATC............................................................................................................................................................................................................................................................................................................................	25	0	20	0.05	1	1	0	0	0	0
....................................................ATCCCCGTCCCCGGTAGGTCC..........................................................................................................................................................................................................................................................................................................	21	0	20	0.05	1	0	0	1	0	0
.................................GTCCAGCGGAGGAGGTCC................................................................................................................................................................................................................................................................................................................................	18	0	20	0.05	1	1	0	0	0	0
.......................................................CCCGTCCCCGTTAGGTCCAGT.......................................................................................................................................................................................................................................................................................................	21	1	20	0.05	1	0	1	0	0	0
......................................................CCCCGTCCCCGGCAGGTCCAG........................................................................................................................................................................................................................................................................................................	21	1	20	0.05	1	1	0	0	0	0
......................................................................................................................................................................................................ATGTCTGCCACGGGTATC...........................................................................................................................................................	18	3	20	0.05	1	0	1	0	0	0
...............................................................CGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................	19	0	20	0.05	1	0	1	0	0	0
..CTGTCGGTCCAGCGGAGGAG.............................................................................................................................................................................................................................................................................................................................................................	20	0	20	0.05	1	0	0	0	0	1
................................................................................................................................................................................................................................TGGGTGGAGATCAGTCTTGT...............................................................................................................................	20	1	20	0.05	1	1	0	0	0	0
...TGTCGGTCCAGCGGCGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................	22	1	20	0.05	1	0	0	1	0	0
.............................................................CCCGGTAGGTCCAGTGAAGGA.................................................................................................................................................................................................................................................................................................	21	1	20	0.05	1	1	0	0	0	0
..........CCAGCGGAGGAGGTCGTCGG.....................................................................................................................................................................................................................................................................................................................................................	20	0	20	0.05	1	0	0	0	1	0
.............................................................CCCGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................	21	0	20	0.05	1	0	0	0	0	1
..............................................................................................................................................................................................................................................................................................................................................................CGGAGGAGGTCCAGTCACTGT	21	1	20	0.05	1	0	0	0	0	1
............................................................................................CGGTCCAGCGGAGGAGGTCCCATCC..............................................................................................................................................................................................................................................................	25	0	20	0.05	1	1	0	0	0	0
......................................................................................................................................................................................................ATGTCGGCCACGGATATA...........................................................................................................................................................	18	3	20	0.05	1	0	1	0	0	0
..CTGTCGGTCCAGCGGAGGAGGTCG.........................................................................................................................................................................................................................................................................................................................................................	24	0	20	0.05	1	0	0	0	0	1
.....................................................................................................................................................GTCATGATCTCCACCCCTTGAA........................................................................................................................................................................................................	22	0	20	0.05	1	0	0	1	0	0
............................................................CCCCGGTAGGTCCAGTGGAGGAGGTCG............................................................................................................................................................................................................................................................................................	27	0	20	0.05	1	0	0	0	0	1
......................................................................................................................................................................................................ATATCTCCCACGGCCATA...........................................................................................................................................................	18	3	20	0.05	1	0	1	0	0	0
....................................................................................................................................................GGTCATGATCTCCACCCCTTG..........................................................................................................................................................................................................	21	0	20	0.05	1	1	0	0	0	0
..............................................................CCGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................	20	0	20	0.05	1	1	0	0	0	0
................................................................................................CCAGCGGAGGAGGTCCCATT...............................................................................................................................................................................................................................................................	20	1	20	0.05	1	1	0	0	0	0

CCCTGTCGGTCCAGCGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCAATCCCCGTCCCCGGTAGGTCCAGTGGAGGAGGTCGTCGGTCGGTCCAGCGGAGGAGGTCCCATCCCCCCCACTTAAAGGCGGGATATATCCAAATCGGTCATGATCTCCACCCCTTGAAGCATCAAACTCTTTTTGATAGCGAGCGATGTCTACCACGGCTATAGCTATCAAGGGGTGGAGATCAGTCTTGTCCACCGCTTATTAACTGGCTAGACTTTATTTTTGTTTGTTAATTTATGTTATTTAAATTGGCGAAATGGAGGACGTCCCTGTCCCGTTCAACCCACGCCGGTATAGCGGAGGAGGTCCAGTCACCGT
**************************************************************************************************************************************************************************************************************...((....((((((..((...((((((.((........)).))))))...))..............))))))))******************************************************************************************

Read size

# Mismatch

Hit Count

Total Norm

Total

M058
embryo

V039
embryo

M044
female body

V055
head

V106
head

..............................................................................................................CTCATCCCCCCCACTTAAAAG................................................................................................................................................................................................................................................

0.50

..................................................................................................................................................................................................................................GGTGGAGATCAGTCTTGTCCA............................................................................................................................

0.35

...TGTCGGTCCAGCGGAGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................

0.20

.......................................................CCCGTCCCCGGTAGGTCCAGT.......................................................................................................................................................................................................................................................................................................

0.15

...............................................................................................................................................................................................................................AGGGGTGGAGATCAGTCTTGT...............................................................................................................................

0.15

....GTCGGTCCAGCGGAGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................

0.15

...........................................................................................................................................................................................................................ATCAAGGGGTGGAGATCAGTC...................................................................................................................................

0.15

..................GGAGGTCGTCGGTCGGTC...............................................................................................................................................................................................................................................................................................................................................

0.15

...............................................................................................................................................................................................................................................................................................................................CCCCTGTCCCGCTCGACCCACG..............................

0.14

..............................................................................AGGAGGTCGTCGGTCGGTCC.................................................................................................................................................................................................................................................................................

0.10

..........................................................................................................................................................................................................................................................................................................................TTACGTCCCTGTCCCGTTCTA....................................

0.10

............AGCGGAGGAGGTCGTCGCTC...................................................................................................................................................................................................................................................................................................................................................

0.10

...TGTCGGTCCAGCGGAGGA..............................................................................................................................................................................................................................................................................................................................................................

0.10

....................................................................................................................................................................................................................................TGGAGATCAGTCTTGTCCACC..........................................................................................................................

0.10

............................................................................................................................................................................................................................................................................TTTATTTTTGTTTGTTAATTT..................................................................................

0.10

..............................................................................................................................................................................................................................AAGGGGTGGAGATCAGTCTTG................................................................................................................................

0.10

..........................................................................................................................................................................................................................................................................................................................TGACGACCCTGTCCCGTTCTA....................................

0.10

...........................................................................................................................................................................................................................................................................................CAATTTATGTGATTTATATTGG..................................................................

0.09

CCCTGTCGGTCCCGCGGAGG...............................................................................................................................................................................................................................................................................................................................................................

0.08

...........................................................................................................................................................................................................................................................................................................AATTGGCGAGACGGAGGA......................................................

0.06

...............................................................................................................................................................................................GCGAGCGATGTCTACCACGGC...............................................................................................................................................................

0.06

....................................................................................................................................................................................TCTTTTTGATAGCGAGCGAGG..........................................................................................................................................................................

0.05

.................................................................................................................................................................................................................................GGGTGGAGATCAGTCTTGTCC.............................................................................................................................

0.05

............................................................CCCCGGTAGGTCCAGTGGAGG..................................................................................................................................................................................................................................................................................................

0.05

.............................................................................................GGTCCAGCGGAGGAGGTCCCA.................................................................................................................................................................................................................................................................

0.05

........................................................................................................................................................................................................................................................CGATCATTAACTGGCTAGA........................................................................................................

0.05

.................................................................................................CAGCGGAGGAGGTCCCATCC..............................................................................................................................................................................................................................................................

0.05

...........................................................................................................................................................................................................................................................................................................................................................TTGCGGAGGAGGTCCAGTC.....

0.05

.....................................................................................................................CCCCCACTTGAATGCCGGA...........................................................................................................................................................................................................................................

0.05

.........................................................CATCCCCGGTAGGTCCAGTG......................................................................................................................................................................................................................................................................................................

0.05

..............................TCGGTCCAGCGGAGGAGGTCCAATC............................................................................................................................................................................................................................................................................................................................

0.05

....................................................ATCCCCGTCCCCGGTAGGTCC..........................................................................................................................................................................................................................................................................................................

0.05

.................................GTCCAGCGGAGGAGGTCC................................................................................................................................................................................................................................................................................................................................

0.05

.......................................................CCCGTCCCCGTTAGGTCCAGT.......................................................................................................................................................................................................................................................................................................

0.05

......................................................CCCCGTCCCCGGCAGGTCCAG........................................................................................................................................................................................................................................................................................................

0.05

......................................................................................................................................................................................................ATGTCTGCCACGGGTATC...........................................................................................................................................................

0.05

...............................................................CGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................

0.05

..CTGTCGGTCCAGCGGAGGAG.............................................................................................................................................................................................................................................................................................................................................................

0.05

................................................................................................................................................................................................................................TGGGTGGAGATCAGTCTTGT...............................................................................................................................

0.05

...TGTCGGTCCAGCGGCGGAGGTC..........................................................................................................................................................................................................................................................................................................................................................

0.05

.............................................................CCCGGTAGGTCCAGTGAAGGA.................................................................................................................................................................................................................................................................................................

0.05

..........CCAGCGGAGGAGGTCGTCGG.....................................................................................................................................................................................................................................................................................................................................................

0.05

.............................................................CCCGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................

0.05

..............................................................................................................................................................................................................................................................................................................................................................CGGAGGAGGTCCAGTCACTGT

0.05

............................................................................................CGGTCCAGCGGAGGAGGTCCCATCC..............................................................................................................................................................................................................................................................

0.05

......................................................................................................................................................................................................ATGTCGGCCACGGATATA...........................................................................................................................................................

0.05

..CTGTCGGTCCAGCGGAGGAGGTCG.........................................................................................................................................................................................................................................................................................................................................................

0.05

.....................................................................................................................................................GTCATGATCTCCACCCCTTGAA........................................................................................................................................................................................................

0.05

............................................................CCCCGGTAGGTCCAGTGGAGGAGGTCG............................................................................................................................................................................................................................................................................................

0.05

......................................................................................................................................................................................................ATATCTCCCACGGCCATA...........................................................................................................................................................

0.05

....................................................................................................................................................GGTCATGATCTCCACCCCTTG..........................................................................................................................................................................................................

0.05

..............................................................CCGGTAGGTCCAGTGGAGGA.................................................................................................................................................................................................................................................................................................

0.05

................................................................................................CCAGCGGAGGAGGTCCCATT...............................................................................................................................................................................................................................................................

0.05

Re-alignment of all predicted orthologs

Species	Coordinate	ID	Alignment
droAna3	scaffold_13150:41252-41622 -	dan_1441	GGGACAGCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGGGCCATCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGGTAGGGGGGGTGAATTTCCGCCCTATATAGGTTTAGCCAGTACTAGAGGTGGGGAACTTCGTAGTTTGAGAAAAACTATCGCTCGCTACAGATGGTGCCGA-TATCGATAGTTCCCCACCTCTAGTCAGAACAGGTGGCGAATAATTGACCGATCTGA---AATAAA--------------AACAAACAATTAAATACAATAAATTTAACCGCTTTACCTCCTGCAGGGACAGGGCAAGTTGGGTGCGGCCATATCGCCTCCTCCAGGTCAGTGGCA
droBip1	scf7180000395149:21997-22128 -		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAAAAAAATAATCGCTCGCTATCGATGGCGCCT-CTATTGATAGTTTTCTACCTCTAGTCAGAGTA-----------CTAGACTTAACTAAGCGAATAAAAGACCGAGTCCAATACTAAATAAATCCGAGCAAAAAAA------------------------------------------------------------------------
droKik1	scf7180000301911:9331-9402 +		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAAAAATAATCGCTCGCTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTAATAAGCACA------------------------------------------------------------------------------------------------------------------------------------------------
droFic1	scf7180000452723:3620-3711 -		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAAAAATAATCGCTCACTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTACTGAGTAGAGGTGCAGAAACATCGAGTGA----------------------------------------------------------------------------------------------------------------------------
droEle1	scf7180000491000:437644-437709 -		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAAAAAAACAATCGCTCACTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTAGCC------------------------------------------------------------------------------------------------------------------------------------------------------
droEug1	scf7180000409695:25226-25296 -		-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAATAATAATCGCTAGCTATCGATGGCGCCGACTATCGATATTTCTCCACCTCTAATCAAGAC-------------------------------------------------------------------------------------------------------------------------------------------------

Re-alignment of all predicted orthologs with sRNA reads

Species

Read alignment

droAna3

GGGACAGCCAGGTCGCCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGTTAGGGGCAGGGGCCATCCAGGTCACCTCCTCCAGCAGCCAGCCAGGTCGCCTCCTCCAGGGTAGGGGGGGTGAATTTCCGCCCTATATAGGTTTAGCCAGTACTAGAGGTGGGGAACTTCGTAGTTTGAGAAAAACTATCGCTCGCTACAGATGGTGCCGA-TATCGATAGTTCCCCACCTCTAGTCAGAACAGGTGGCGAATAATTGACCGATCTGA---AATAAA--------------AACAAACAATTAAATACAATAAATTTAACCGCTTTACCTCCTGCAGGGACAGGGCAAGTTGGGTGCGGCCATATCGCCTCCTCCAGGTCAGTGGCA	Size	Hit Count	Total Norm	Total	M044 Female-body	M058 Embryo	V039 Embryo	V055 Head	V105 Male-body	V106 Head
..........................................................................................CAGCCAGGTCGCCTCCTCC........................................................................................................................................................................................................................................................................................	19	20	0.30	6	0	6	0	0	0	0
................................................................................................................................................TTAGCCAGTACTAGAGGTGGG................................................................................................................................................................................................................................	21	20	0.15	3	0	0	3	0	0	0
.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGT..............................................................................................................................................................................................................................	22	20	0.10	2	0	2	0	0	0	0
................................................................................CTCCAGCAGCCAGCCAGGTCGCC..............................................................................................................................................................................................................................................................................................	23	20	0.10	2	0	0	0	0	0	2
...................................................................................................................................................................................................................................................CAGGTGGCGAATAATTGACCGA............................................................................................................................	22	18	0.06	1	0	1	0	0	0	0
.....................................................................................GCAGCCAGCCAGGTCGCCTCCTCCA.......................................................................................................................................................................................................................................................................................	25	20	0.05	1	0	0	0	0	0	1
............................................................................CCTCCTCCAGCAGCCAGCC......................................................................................................................................................................................................................................................................................................	19	20	0.05	1	0	0	0	1	0	0
.................................................................................................................................................TAGCCAGTACTAGAGGTGGGGA..............................................................................................................................................................................................................................	22	20	0.05	1	0	1	0	0	0	0
....................................................................................................................................................................................................................................................AGGTGGCGAATAATTGCGA..............................................................................................................................	19	20	0.05	1	0	0	1	0	0	0

droBip1

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAAAAAAATAATCGCTCGCTATCGATGGCGCCT-CTATTGATAGTTTTCTACCTCTAGTCAGAGTA-----------CTAGACTTAACTAAGCGAATAAAAGACCGAGTCCAATACTAAATAAATCCGAGCAAAAAAA------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droKik1

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAAAAATAATCGCTCGCTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTAATAAGCACA------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droFic1

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAAAAATAATCGCTCACTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTACTGAGTAGAGGTGCAGAAACATCGAGTGA----------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEle1

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAAAAAAACAATCGCTCACTATCGATGGCGCCGACTATCGATAGTTCTCCACCTCTAGCC------------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

droEug1

-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------TGGTTTGAGAATAATAATCGCTAGCTATCGATGGCGCCGACTATCGATATTTCTCCACCTCTAATCAAGAC-------------------------------------------------------------------------------------------------------------------------------------------------	Size	Hit Count	Total Norm	Total
No Reads

-28.3	-28.3	-28.1	-28.1

dan_1441

scaffold_13150:41302-41572 -

Candidate

Unknown

Predicted structure

Flybase annnotation

Repeatable elements

Sense Strand Reads

Anti-sense strand reads

Re-alignment of all predicted orthologs

Re-alignment of all predicted orthologs with sRNA reads